Sequence
atgc intronic sequence ATGC exonic sequencegtatgagattagtcatctcttagactggtaatcttttttccttttgcatataaaactttctgaatattatgcatctaatttctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G07990.2 (Glycine max), 3'ss of exon 10
gtatgagattagtcatctcttagactggtaatcttttttccttttgcatataaaactttctgaatattatgcatctaatttctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA
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----------------------gaat--cagttgtttatgcttttgca----atatcctaagagttttgtgcaattatttgtttgtcattttcctaaatttattt------tatttatgtattttgttt--gacagAAAGATAGTGAATATCTAAGTGGCCATGAGGTGTTCCTCAGGCGTGTTGCCTCTGCCTTCAACAACTTTGCAGAATCTACTGAAAAATCATGCCGTGAAA
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G24890.1 (Glycine max), 3'ss of exon 8
gtatgagattagtcatctcttagactggtaatcttttttccttttgcatataaaactttctgaatattatgcatctaatttctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA
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--------------------tgaatcagttgt---ttatgcttttgcaaata-----tcctaagttttgtacaattattagttttttattttcctaa----acttat--tttatttatatattttgttt--gacagAAAGATTGTGAATATCTAAGTGGCCATGAGGTGTTCCTCAGGCGTGCTGCCTCTGCCTTCAACAACTTTGCAGAATCTACTGAAAAATCATGCCGTGAAA
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT3G19720.2 (Arabidopsis thaliana), 3'ss of exon 12
gtatgagattagtcatctcttagactggtaatcttttttccttttgcatataaaactttctgaatattatgcatctaatttctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA
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---------------------------------------------gtaggtactgttttctttggtttgacggtatcata-ctcatgatccctttccagcaaattttttgatgtatgtt---ctaaatttgaatagAAAGAAGGTGAATATTTAAGTGGGCATGAGGTGTTTCTCAAGCGGGTTGCTTCAGCATTCAACAGTTTTGTGGAGTCCACAGAAAAATCATGTCGTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA
acttgac putative branch site (score: 4)
tttcc putative PPT
aattttttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgagattagtcatctcttagactggtaatcttttttccttttgcatataaaactttctgaatattatgcatctaatttctggtaatttttttggggttacttatccttcctttacttgactggtttccaatagAAAGATGGTGAATATCTAAGTGGCCATGAGGTGTTTCTCCGGCGTGTTGCTTCGGCCTTCAACAATTTTGCTGAATCCACTGAAAGAGAATGCCATGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA